processBarcodeLibrary

process barcode reference file from raw sequencing datasets

Usage

processBarcodeLibrary(
  file = NULL,
  samplename = "Barcode",
  cutoff = 10,
  header = FALSE,
  outdir = tempdir()
)

Arguments

file

path to starcode output for barcode library

samplename

name of reference library. Will be prefixed to each barcode in the reference

cutoff

rowsum cutoff defining barcodes to keep in the reference library

header

Logical. Does the input file contain a header line

outdir

Desired output directory to save library files

Value

returns data frame containing barcode and read count in reference